# HG changeset patch
# User greg
# Date 1484236187 18000
# Node ID 79c8d886e43bdc1cb1d98912a550223074afe763
# Parent  c42769258e0d1a62a28575c642aaa29b2a78f89b
Uploaded

diff -r c42769258e0d -r 79c8d886e43b phylogenomics_analysis.xml
--- a/phylogenomics_analysis.xml	Thu Jan 12 10:03:58 2017 -0500
+++ b/phylogenomics_analysis.xml	Thu Jan 12 10:49:47 2017 -0500
@@ -146,18 +146,18 @@
 
             && echo "Sequence alignments and corresponding phylogenies: `ls $src_fasta_dir | grep f | wc -l` files" > $output_fasta
             && ls -al $src_fasta_dir | grep f >> $output_fasta
-            && mv $src_fasta_dir/* $dest_fasta_dir
+            && mv $src_fasta_dir/* $dest_fasta_dir || true
 
             #if $generate_output_aln:
                 && echo "Multiple sequence alignments using method '$multiple_sequence_alignments_option' (note that some files may be empty): `ls $src_aln_dir | grep f | wc -l` files" > $output_aln
                 && ls -al $src_aln_dir | grep f >> $output_aln
-                && mv $src_aln_dir/* $dest_aln_dir
+                && mv $src_aln_dir/* $dest_aln_dir || true
             #end if
 
             #if $generate_output_tree:
                 && echo "Phylogenetic trees (note that some files may be empty): `ls $src_tree_dir | grep f | wc -l` files" > $output_tree
                 && ls -al $src_tree_dir | grep f >> $output_tree
-                && mv $src_tree_dir/* $dest_tree_dir
+                && mv $src_tree_dir/* $dest_tree_dir || true
             #end if
         ]]>
     </command>